pysam version 0.9.1.4 causes an error on install.

[owainkenwayucl]

I've been updating various packages on our cluster and it looks like the latest version of pysam causes an error when you pip install pysamstats:

Collecting pysamstats
  Downloading pysamstats-0.24.3.tar.gz (265kB)
    100% |████████████████████████████████| 266kB 3.8MB/s
    Complete output from command python setup.py egg_info:
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/tmp/pip-build-347ta_gj/pysamstats/setup.py", line 12, in <module>
        if StrictVersion(pysam.__version__) < StrictVersion(required_pysam_version):
      File "/shared/ucl/apps/python/3.4.3/gnu-4.9.2/lib/python3.4/distutils/version.py", line 40, in __init__
        self.parse(vstring)
      File "/shared/ucl/apps/python/3.4.3/gnu-4.9.2/lib/python3.4/distutils/version.py", line 143, in parse
        raise ValueError("invalid version number '%s'" % vstring)
    ValueError: invalid version number '0.9.1.4'

    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-build-347ta_gj/pysamstats/

If I had to guess this is caused by the version number being w.x.y.z instead of x.y.z, as installing against pysam 0.9.0 works fine.

[alimanfoo]

Thanks @owainkenwayucl, sorry for the slow response. I need to update pysamstats anyway to check compatibility with recent pysam versions, have been waiting for the pysam install issues to settle down. Hopefully can schedule some time on this in the next few weeks.

[podpearson]

If anyone wants a quick workaround to get pysamstats to install with pysam 0.9.1.4, clone from github, change the string StrictVersion to LooseVersion in setup.py (3 places), then run python setup.py install

[alimanfoo]

Thanks Richard.

On Friday, October 7, 2016, Richard Pearson [email protected] wrote:

If anyone wants a quick workaround to get pysamstats to install with pysam 0.9.1.4, clone from github, change the string StrictVersion to LooseVersion in setup.py (3 places), then run python setup.py install

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